Mercurial > repos > iuc > crossmap_bw

diff crossmap_bigwig.xml @ 4:bbd9d5b629f2 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crossmap commit 23fab16cd40acbd5b0e9d640ed3858040db7a622
author iuc
date Thu, 24 May 2018 19:08:23 -0400
parents d3051afe9a38
children cafcf7eecf44
line wrap: on
line diff
--- a/crossmap_bigwig.xml	Fri Oct 20 11:31:34 2017 -0400
+++ b/crossmap_bigwig.xml	Thu May 24 19:08:23 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="crossmap_bw" name="CrossMap BigWig" version="@WRAPPER_VERSION@-0">
+<tool id="crossmap_bw" name="CrossMap BigWig" version="@WRAPPER_VERSION@">
     <description>Convert genome coordinates or annotation files between genome assemblies</description>
     <macros>
         <import>macros.xml</import>
@@ -11,9 +11,7 @@
 CrossMap.py bigwig
 '${chain_source.input_chain}'
 '${input}'
-'${output}'
-
-&& mv '${output}.bw' '${output}'
+output
     ]]></command>
 
     <inputs>
@@ -23,7 +21,7 @@
     </inputs>
 
     <outputs>
-        <data name="output" format="bigwig" label="${tool.name} on ${on_string}" />
+        <data name="output" format="bigwig" label="${tool.name} on ${on_string}" from_work_dir="output.bw" />
     </outputs>
 
     <tests>
@@ -54,7 +52,6 @@
 wigToBigWig tool. We export files in bedGraph because it is usually much
 smaller than file in wiggle format, and more importantly, CrossMap
 internally transforms wiggle into bedGraph to increase running speed.
-
     ]]></help>
 
     <citations>